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Single-cell omics: experimental workflow, data analyses and applications
Cells are the fundamental units of biological systems and exhibit unique development
trajectories and molecular features. Our exploration of how the genomes orchestrate the …
trajectories and molecular features. Our exploration of how the genomes orchestrate the …
Profiling chromatin regulatory landscape: insights into the development of ChIP-seq and ATAC-seq
S Ma, Y Zhang - Molecular biomedicine, 2020 - Springer
Chromatin regulatory landscape plays a critical role in many disease processes and embryo
development. Epigenome sequencing technologies such as chromatin immunoprecipitation …
development. Epigenome sequencing technologies such as chromatin immunoprecipitation …
Development of double-positive thymocytes at single-cell resolution
Background T cells generated from thymopoiesis are essential for the immune system, and
recent single-cell studies have contributed to our understanding of the development of …
recent single-cell studies have contributed to our understanding of the development of …
Machine learning for deciphering cell heterogeneity and gene regulation
Epigenetics studies inheritable and reversible modifications of DNA that allow cells to
control gene expression throughout their development and in response to environmental …
control gene expression throughout their development and in response to environmental …
Dynamics and regulation of mitotic chromatin accessibility bookmarking at single-cell resolution
Although mitotic chromosomes are highly compacted and transcriptionally inert, some active
chromatin features are retained during mitosis to ensure the proper postmitotic …
chromatin features are retained during mitosis to ensure the proper postmitotic …
Intrinsic bias estimation for improved analysis of bulk and single-cell chromatin accessibility profiles using SELMA
Genome-wide profiling of chromatin accessibility by DNase-seq or ATAC-seq has been
widely used to identify regulatory DNA elements and transcription factor binding sites …
widely used to identify regulatory DNA elements and transcription factor binding sites …
Are dropout imputation methods for scRNA-seq effective for scATAC-seq data?
The tremendous progress of single-cell sequencing technology has given researchers the
opportunity to study cell development and differentiation processes at single-cell resolution …
opportunity to study cell development and differentiation processes at single-cell resolution …
simATAC: a single-cell ATAC-seq simulation framework
Single-cell assay for transposase-accessible chromatin sequencing (scATAC-seq) identifies
regulated chromatin accessibility modules at the single-cell resolution. Robust evaluation is …
regulated chromatin accessibility modules at the single-cell resolution. Robust evaluation is …
TooManyPeaks identifies drug-resistant-specific regulatory elements from single-cell leukemic epigenomes
Emerging single-cell epigenomic assays are used to investigate the heterogeneity of
chromatin activity and its function. However, identifying cells with distinct regulatory …
chromatin activity and its function. However, identifying cells with distinct regulatory …
Fundamental and practical approaches for single-cell ATAC-seq analysis
Assays for transposase-accessible chromatin through high-throughput sequencing (ATAC-
seq) are effective tools in the study of genome-wide chromatin accessibility landscapes. With …
seq) are effective tools in the study of genome-wide chromatin accessibility landscapes. With …